[BioRuby-cvs] bioruby/lib/bio/db nexus.rb,NONE,1.1

[Chris Zmasek]

Update of /home/repository/bioruby/bioruby/lib/bio/db
In directory dev.open-bio.org:/tmp/cvs-serv28474

Added Files:
	nexus.rb 
Log Message:
Initial commit of nexus.rb - a parser for nexus formatted data
(developed at first phyloinformatics hackathon at nescent in durham, nc, usa)



--- NEW FILE: nexus.rb ---
#
# = bio/db/nexus.rb - Nexus Standard phylogenetic tree parser / formatter
#
# Copyright::  Copyright (C) 2006        Christian M Zmasek <cmzmasek at yahoo.com>
#
# License::    Ruby's
#
# $Id: nexus.rb,v 1.1 2006/12/19 05:09:46 czmasek Exp $
#
# == Description
#
# This file contains classes that implement a parser for NEXUS formatted
# data as well as objects to store, access, and write the parsed data.
#
# The following five blocks:
# taxa, characters, distances, trees, data
# are recognizable and parsable.
#
# The parser can deal with (nested) comments (indicated by square brackets),
[...1817 lines suppressed...]
      def Util::larger_than_zero( i )
        return ( i != nil && i.to_i > 0 )
      end
        
      # Returns true if String str is not nil and longer than 0.
      # ---
      # *Arguments*:
      # * (required) _str_: String 
      # *Returns*:: true or false
      def Util::longer_than_zero( str )
        return ( str != nil && str.length > 0 )
      end
      
    end # class Util
      
  end # class Nexus
    
end #module Bio